BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0001.2911.p (393 letters) Database: BlastDatabases/689/689 4735 sequences; 1,619,870 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value gi|300312245|ref|YP_003776337.1| transmembrane efflux transmembr... 682 0.0 gi|300312509|ref|YP_003776601.1| arabinose efflux permease [Herb... 340 1e-94 gi|300313915|ref|YP_003778007.1| transmembrane arabinose efflux ... 133 2e-32 gi|300310405|ref|YP_003774497.1| arabinose efflux permease [Herb... 110 2e-25 gi|300312340|ref|YP_003776432.1| transporter transmembrane prote... 64 3e-11 >gi|300312245|ref|YP_003776337.1| transmembrane efflux transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 395 Score = 682 bits (1760), Expect = 0.0, Method: Compositional matrix adjust. Identities = 364/393 (92%), Positives = 375/393 (95%) Query: 1 MPIALWALTISAFAIGTTEFVIMGLLPEVAANLGVSLSSAGLLVTGYALGVFVGAPLVTA 60 MPIALWALTISAFAIGTTEFVIMGLLPEVAANLGVSLSSAGLLVTGYALGVFVGAPL+TA Sbjct: 1 MPIALWALTISAFAIGTTEFVIMGLLPEVAANLGVSLSSAGLLVTGYALGVFVGAPLLTA 60 Query: 61 TTGRLPRKTLLIALMVVFVIGNLACAMAPGYVTLMIGRVVASFAHGAFFGVGSVVATSLV 120 TTGRLPRKTLL+ALMVVFV+GNLACA+AP Y TLMIGRVVASFAHGAFFGVGSVVATSLV Sbjct: 61 TTGRLPRKTLLVALMVVFVVGNLACAIAPDYTTLMIGRVVASFAHGAFFGVGSVVATSLV 120 Query: 121 PKEKQASAIALMFTGLTVANVLGVPFGTWLGQSYGWRATFWAVTAIGVIALAATAVLVPR 180 PKEKQASAIALMFTGLTVANVLGVPFGTWLGQSYGWRATFWAVT IGVIALAATAVLVPR Sbjct: 121 PKEKQASAIALMFTGLTVANVLGVPFGTWLGQSYGWRATFWAVTVIGVIALAATAVLVPR 180 Query: 181 SQGGQEADFGKEVRVLMRPQVMLGLLMTVLGFGGVFAAFTYIAPILTDISGFPASAVSPI 240 SQGG+E DFGKEVRVLMRPQVMLGLLMTVLGFGGVFAAFTYIAPILTD+SGFPASAVSPI Sbjct: 181 SQGGEETDFGKEVRVLMRPQVMLGLLMTVLGFGGVFAAFTYIAPILTDLSGFPASAVSPI 240 Query: 241 LLLFGLGLVIGNLAGGKLADKKLMATLLGSLVLLAVVLVLFGLTNGHQIAAIVGVGLMGM 300 LLLFGLGLVIGNLAGGKLADKKLMATLLGSLVLLA VLVLFGLT +++AAI+GVGLMGM Sbjct: 241 LLLFGLGLVIGNLAGGKLADKKLMATLLGSLVLLAAVLVLFGLTVDNKVAAIIGVGLMGM 300 Query: 301 AAFATVPPLQMRVLEKATGAPNLASSANIAAFNLGNAAGAWLGGVTIDHGPGLHAVPYVA 360 AAFATVPPLQMRVLEKATGAPNLASSANIAAFNLGNAAGAWLGGVTIDHGPGLHAVPYVA Sbjct: 301 AAFATVPPLQMRVLEKATGAPNLASSANIAAFNLGNAAGAWLGGVTIDHGPGLHAVPYVA 360 Query: 361 ALLPLAGIVVALVSWKMDASPAALSRPERTTTC 393 ALLPLAGIVVALVSWKMDA A + T Sbjct: 361 ALLPLAGIVVALVSWKMDAGRATAQHGSSSDTA 393 >gi|300312509|ref|YP_003776601.1| arabinose efflux permease [Herbaspirillum seropedicae SmR1] Length = 385 Score = 340 bits (873), Expect = 1e-94, Method: Compositional matrix adjust. Identities = 189/374 (50%), Positives = 251/374 (67%) Query: 5 LWALTISAFAIGTTEFVIMGLLPEVAANLGVSLSSAGLLVTGYALGVFVGAPLVTATTGR 64 L+AL ++AF IGTTEFVIMGLLP+VA +LGV+ +AG+LV+GYALGV GAP++ T + Sbjct: 5 LFALAVAAFGIGTTEFVIMGLLPDVARDLGVTAPAAGMLVSGYALGVAAGAPILAILTAK 64 Query: 65 LPRKTLLIALMVVFVIGNLACAMAPGYVTLMIGRVVASFAHGAFFGVGSVVATSLVPKEK 124 PRK L+ LM +F++GN+ CA+AP YV LM+ RVV +F H AFFG+GSVVA LV +K Sbjct: 65 WPRKQALVGLMCLFILGNVLCALAPNYVFLMVARVVTAFCHAAFFGIGSVVAAELVAPQK 124 Query: 125 QASAIALMFTGLTVANVLGVPFGTWLGQSYGWRATFWAVTAIGVIALAATAVLVPRSQGG 184 +A A+ALMFTGLTVAN+LGVP GT G + GWR+TF AVTAIGV+A ++P+ Sbjct: 125 RAQAVALMFTGLTVANILGVPLGTAFGHAAGWRSTFGAVTAIGVLAAIMLWTMLPKKIPM 184 Query: 185 QEADFGKEVRVLMRPQVMLGLLMTVLGFGGVFAAFTYIAPILTDISGFPASAVSPILLLF 244 Q + +E R ++ +V L LL + L +F+ TYIA IL D++GF S +LLLF Sbjct: 185 QAGNIFQEFRSIIDTRVQLSLLTSTLASISMFSVITYIAYILLDVTGFTTQQESWVLLLF 244 Query: 245 GLGLVIGNLAGGKLADKKLMATLLGSLVLLAVVLVLFGLTNGHQIAAIVGVGLMGMAAFA 304 G G+ +G L GGKLAD KLM + G + +AVVL LF +T+ ++ + + G AFA Sbjct: 245 GAGITVGGLVGGKLADWKLMPVMCGVFLCIAVVLGLFSITSHYKWPTLATMFAWGAFAFA 304 Query: 305 TVPPLQMRVLEKATGAPNLASSANIAAFNLGNAAGAWLGGVTIDHGPGLHAVPYVAALLP 364 VP Q+RVL+ A GAPNLAS+ N AFNLGNA GAW+GG+ I G L +P + A Sbjct: 305 VVPGAQIRVLDTARGAPNLASTLNQGAFNLGNATGAWVGGLAISAGLPLTDLPLIGAFFA 364 Query: 365 LAGIVVALVSWKMD 378 L G+ S +D Sbjct: 365 LLGLATVAFSASLD 378 >gi|300313915|ref|YP_003778007.1| transmembrane arabinose efflux transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 403 Score = 133 bits (335), Expect = 2e-32, Method: Compositional matrix adjust. Identities = 117/367 (31%), Positives = 190/367 (51%), Gaps = 25/367 (6%) Query: 8 LTISAFAIGTTEFVIMGLLPEVAANLGVSLSSAGLLVTGYALGVFVGAPLVTATTGRLPR 67 L + FAIGT F+I LLP +AA+ G+S+ LV + L + + +P+ T + + R Sbjct: 29 LALGTFAIGTEGFMIAPLLPRMAADFGMSVPMVASLVVIFTLVLALSSPISTVLSAAMNR 88 Query: 68 KTLLIALMVVFVIGNLACAMAPGYVTLMIGRVVASFAHGAFFGVGSVVATSLVPKEKQAS 127 + +LIA M F NL A + + L++ R++ + A G + S +A ++V ++ Sbjct: 89 RRVLIAAMTAFTAANLLAACSSSFTGLLVARLLMAVAAGLYTPNASALAGAMVAPGQRGR 148 Query: 128 AIALMFTGLTVANVLGVPFGTWLGQSYGWRATFWAVTAIGVIALAATAVLVPRSQGG--Q 185 A+A++ G+T + LG+P G +G ++GWRATF AV+A+G +ALA + VPR G Sbjct: 149 ALAIVSGGMTSPSALGLPLGAVVGHAFGWRATFLAVSAMGAVALAGILLGVPRQAGAHLH 208 Query: 186 EADFGKEVRVLMRPQVMLGLLMTVLGFGGVFAAFTYIAPILTDISGFPASAVSPILLLFG 245 A + + V+ +PQV L +T+L G +AA+ YIAP L+ + F S +S + L+G Sbjct: 209 VAGLRERMAVIGQPQVQRLLAVTLLWSVGAYAAYPYIAPYLSHVLSFGESRISLTVSLWG 268 Query: 246 LGLVIGNLAGGKLADKKLMATLLGSLVLLAVVLVLFGLTNGHQIAA------------IV 293 +G GG L D+ GS ++ V L+L L+ AA ++ Sbjct: 269 AAAAVGVSVGGTLNDRY------GSARVVRVSLLLLMLSFWTLAAATALPPPLALGPVLL 322 Query: 294 GVGLMGMAAFATVPPLQMRVL-----EKATGAPNLASSANIAAFNLGNAAGAWLGGVTID 348 V + G + +A P R++ +A A +L +S F+LG+AAGA + G Sbjct: 323 AVVVWGFSVWAFFPAQMARLIGAGAPAQAPVALSLNTSTLYLGFSLGSAAGAGILGSGAI 382 Query: 349 HGPGLHA 355 G GL A Sbjct: 383 WGIGLFA 389 >gi|300310405|ref|YP_003774497.1| arabinose efflux permease [Herbaspirillum seropedicae SmR1] Length = 422 Score = 110 bits (275), Expect = 2e-25, Method: Compositional matrix adjust. Identities = 104/343 (30%), Positives = 174/343 (50%) Query: 7 ALTISAFAIGTTEFVIMGLLPEVAANLGVSLSSAGLLVTGYALGVFVGAPLVTATTGRLP 66 +L + F++ T EF+ LL +A++L VS +AG VT A+ V AP + T + Sbjct: 41 SLALGVFSLVTAEFLPASLLTAIASDLHVSDGAAGQAVTATAIVGAVAAPSIPLLTRNID 100 Query: 67 RKTLLIALMVVFVIGNLACAMAPGYVTLMIGRVVASFAHGAFFGVGSVVATSLVPKEKQA 126 RK +++ L ++ ++ N+ AP L++ RV+ A G F+ + + +A LVP A Sbjct: 101 RKRVVLMLSLLLLVSNILAVTAPNLPVLLVARVLLGVALGGFWSMAAALAMRLVPDHLFA 160 Query: 127 SAIALMFTGLTVANVLGVPFGTWLGQSYGWRATFWAVTAIGVIALAATAVLVPRSQGGQE 186 A++L+ TG++VA V P G ++G +GWR+ F A + ++A+A + +PR Sbjct: 161 RAMSLILTGVSVATVCAAPIGAYMGNLWGWRSAFVAAGVVSLVAIAIQWIAIPRLPPKDH 220 Query: 187 ADFGKEVRVLMRPQVMLGLLMTVLGFGGVFAAFTYIAPILTDISGFPASAVSPILLLFGL 246 +L R V + LL +L G FA FTYI P++ I+ + +S +LL +G+ Sbjct: 221 PSLKVLAELLGRKDVRVALLAVLLVVSGHFAGFTYIRPLMEQITHMSVTTISAVLLGYGV 280 Query: 247 GLVIGNLAGGKLADKKLMATLLGSLVLLAVVLVLFGLTNGHQIAAIVGVGLMGMAAFATV 306 G GN AGG +A++ ++ L+A++ + + A V + L G A A Sbjct: 281 GGFFGNFAGGFIAERSERYAIVSGGALIALLAASLWVAGSSPVVAAVAITLWGFAFGAFP 340 Query: 307 PPLQMRVLEKATGAPNLASSANIAAFNLGNAAGAWLGGVTIDH 349 Q ++ A A +AAF + A+GA GGV +DH Sbjct: 341 VGFQTWIVRAAPDHAEGAGGLLVAAFQVAIASGAIGGGVLVDH 383 >gi|300312340|ref|YP_003776432.1| transporter transmembrane protein [Herbaspirillum seropedicae SmR1] Length = 421 Score = 63.5 bits (153), Expect = 3e-11, Method: Compositional matrix adjust. Identities = 62/258 (24%), Positives = 109/258 (42%), Gaps = 13/258 (5%) Query: 32 NLGVSLSSAGLLVTGYALGVFVGAPLVTATTGRLPRKTLLIALMVVFVIGNLACAMAPGY 91 ++ ++ GL+V+ YA L R RK LL+ FV+G + C +A + Sbjct: 51 SMQITPQQFGLVVSAYAFSAGASGLLTAGFADRFDRKRLLLFFYGGFVLGTVWCGLAQSF 110 Query: 92 VTLMIGRVVASFAHGAFFGVGSVVATSLVPKEKQASAIALMFTGLTVANVLGVPFGTWLG 151 +L++ R+V G + +AT L + + ++ T + VLG+P G +L Sbjct: 111 ESLLLARIVTGLFGGVIGSITLAIATDLFAPHLRGRVMGVIQTSFAASQVLGIPIGLYLS 170 Query: 152 QSYGWRATFWAVTAIGVIALAATAVLVPRSQ--------GGQEADFGKEVRVLMRPQVML 203 + W F A+ A+G LA V++ R Q + + + L P+ + Sbjct: 171 NRWNWHVPFLAMAALG---LAGGLVVLVRMQPVDGHLTLKQEHSAWMHLYHTLAEPRYLT 227 Query: 204 GLLMTVLGFGGVFAAFTYIAPILTDISGFPASAVSPILLLFGLGLVIGNLAGGKLADK-- 261 T L G F + + L G + + I L+ GL + G+ ADK Sbjct: 228 AFATTALLMTGGFMLMPFSSAYLVGNLGIDMAHLPTIYLVTGLCTIAFGPLIGRAADKLG 287 Query: 262 KLMATLLGSLVLLAVVLV 279 KL L G+++ + +VL+ Sbjct: 288 KLRVFLFGAVLSIIMVLI 305 Database: BlastDatabases/689/689 Posted date: Apr 10, 2011 12:15 AM Number of letters in database: 1,619,870 Number of sequences in database: 4735 Lambda K H 0.325 0.139 0.411 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 4735 Number of Hits to DB: 1,002,191 Number of extensions: 36191 Number of successful extensions: 306 Number of sequences better than 1.0e-08: 18 Number of HSP's gapped: 306 Number of HSP's successfully gapped: 18 Length of query: 393 Length of database: 1,619,870 Length adjustment: 87 Effective length of query: 306 Effective length of database: 1,207,925 Effective search space: 369625050 Effective search space used: 369625050 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 15 ( 7.0 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 40 (21.6 bits) S2: 131 (55.1 bits)